genome.fa.s4.2.7.7.80.10.50.1000.104.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  104  of  235  ( 28198 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35851534--35851567	13	2.6	13	95	0	59	35	44	8	11	1.72
35854657--35854714	27	2.1	27	96	0	107	31	6	24	37	1.82
35854769--35854988	45	5.0	45	85	2	268	25	20	27	26	1.99
35860304--35860473	63	2.7	64	77	5	175	21	24	20	33	1.97
35860758--35860782	12	2.1	12	100	0	50	40	8	0	52	1.31
35862359--35862400	19	2.3	18	87	4	57	64	4	2	28	1.26
35863737--35863774	19	2.0	19	89	0	58	28	7	10	52	1.64
35863850--35863982	18	7.4	18	99	0	257	48	0	0	50	1.06
35864431--35864473	9	4.8	9	91	0	68	34	27	13	23	1.93
35864424--35864473	18	2.8	18	84	0	73	38	24	12	26	1.90
35864492--35864532	6	6.5	6	83	10	55	17	0	4	78	0.93
35868769--35868920	10	16.0	9	68	17	69	59	0	5	34	1.22
35868825--35868868	21	2.2	20	91	4	70	61	0	4	34	1.16
35868867--35868944	34	2.3	34	77	16	90	66	0	3	29	1.09
35868840--35868938	44	2.2	45	83	7	130	63	0	4	32	1.13
35869192--35869323	9	13.8	9	70	16	54	34	3	1	60	1.21
35869196--35869244	21	2.4	20	82	3	53	34	4	0	61	1.15
35869396--35869453	20	3.0	19	82	9	64	65	3	0	31	1.09
35872931--35872969	16	2.4	17	86	4	53	64	10	0	25	1.25
35882879--35882953	37	2.0	37	92	0	123	21	13	29	36	1.91
35891682--35891847	43	3.9	43	77	7	149	34	27	12	25	1.92
35893627--35893674	21	2.2	22	85	3	62	31	18	4	45	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35893788--35893837	22	2.3	22	86	6	66	42	24	20	14	1.88
35897240--35897325	24	3.6	24	80	0	100	23	18	25	32	1.97
35897288--35897434	65	2.3	64	89	1	213	25	18	25	30	1.98
35913800--35913863	32	2.0	32	96	0	119	26	9	32	31	1.88
35920241--35920299	30	2.0	30	100	0	118	33	3	30	32	1.74
35921357--35921398	13	3.0	13	86	13	57	59	0	0	40	0.97
35921358--35921392	8	4.4	8	92	0	61	60	0	0	40	0.97
35921403--35921445	9	5.0	9	86	11	63	79	2	9	9	1.03
35923893--35923971	31	2.5	31	85	4	106	18	27	11	41	1.85
35928001--35928090	21	4.3	21	73	5	74	27	28	16	26	1.97
35928138--35928188	21	2.4	22	87	9	79	25	3	31	39	1.74
35934821--35934855	18	1.9	18	88	0	52	48	8	25	17	1.75
35934963--35935007	16	2.8	16	82	0	63	62	15	6	15	1.52
35939144--35939188	16	2.8	16	86	0	63	62	13	8	15	1.54
35939320--35939369	17	2.9	18	79	8	59	44	10	16	30	1.80
35939691--35939723	17	2.1	16	88	11	50	30	0	0	69	0.88
35940571--35940626	27	2.1	27	100	0	112	37	19	7	35	1.79
35940842--35940884	20	2.1	21	82	4	52	67	18	2	11	1.32
35941920--35941957	18	2.1	18	100	0	76	21	5	10	63	1.46
35943561--35943594	17	2.0	18	88	11	54	41	11	0	47	1.40
35966230--35966275	3	15.3	3	100	0	92	32	0	0	67	0.91
35967798--35967914	58	2.0	58	98	0	225	19	11	15	52	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35967892--35967938	6	7.8	6	95	0	85	17	2	0	80	0.80
35968406--35968441	16	2.2	16	100	0	72	33	13	5	47	1.67
35968760--35968789	15	2.0	15	93	0	51	16	23	6	53	1.66
35975301--35975359	29	2.0	29	83	6	75	37	11	5	45	1.63
35986434--35986478	19	2.4	19	88	7	65	22	22	13	42	1.88
35990223--35990379	53	3.0	53	90	0	233	21	13	8	56	1.63
35990232--35990322	27	3.4	26	70	25	82	21	16	6	54	1.64
35990816--35990988	46	3.8	46	87	2	233	34	15	23	27	1.95
35991218--35991337	46	2.6	46	80	3	127	32	21	15	30	1.95
35991003--35991609	44	13.6	45	68	8	211	30	20	17	30	1.96
35990971--35992189	268	4.5	268	75	7	1234	32	19	18	29	1.96
35990971--35992189	179	6.8	179	83	4	1239	32	19	18	29	1.96
35991965--35992184	44	4.9	45	73	7	146	32	21	17	28	1.96
35992023--35992137	46	2.5	46	84	4	135	31	19	17	32	1.95
35993851--35993908	14	3.7	15	77	11	55	25	6	0	67	1.16
35993871--35993910	18	2.2	19	82	13	57	27	5	0	67	1.11
35999828--35999955	24	5.3	24	63	7	80	17	52	18	11	1.74
35999807--35999979	48	3.6	48	91	0	274	17	53	15	13	1.73
36004535--36004822	130	2.2	132	80	3	350	34	16	16	32	1.91
36006428--36006468	20	2.2	19	91	8	66	48	4	7	39	1.52
36007942--36008200	132	2.0	132	84	4	346	27	25	18	29	1.98
36008190--36008364	44	4.0	44	81	3	208	26	30	14	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36020116--36020469	130	2.7	130	76	4	363	34	16	17	31	1.92
36022071--36022111	20	2.2	19	91	8	66	48	4	7	39	1.52
36023585--36023843	132	2.0	132	84	4	346	27	25	18	28	1.98
36023833--36024065	44	5.3	44	83	2	279	27	30	14	28	1.95
36024045--36024079	14	2.5	14	90	0	52	20	20	11	48	1.79
36033591--36034003	209	2.0	209	98	0	790	29	28	17	24	1.97
36036336--36036689	130	2.7	130	76	6	358	34	16	17	31	1.93
36037949--36038249	147	2.0	148	82	4	358	51	3	10	33	1.55
36038291--36038331	20	2.2	19	91	8	66	48	4	7	39	1.52
36039911--36039997	31	2.7	32	76	3	95	16	20	17	45	1.85
36045369--36045399	2	15.5	2	100	0	62	51	0	0	48	1.00
36047272--36047330	30	2.0	30	86	6	84	20	49	11	18	1.79
36049677--36049712	17	2.1	17	100	0	72	27	22	13	36	1.92
36052316--36052358	22	2.0	22	86	9	61	39	0	2	58	1.11
36052749--36052798	7	7.4	7	73	8	50	30	0	4	66	1.10
36055290--36055349	29	2.1	28	81	9	68	56	8	1	33	1.39
36057032--36057390	179	2.0	179	86	2	506	33	10	7	48	1.65
36061926--36061966	19	2.1	19	86	9	55	63	0	4	31	1.15
36063507--36063922	44	9.5	44	66	13	219	20	22	22	33	1.97
36063486--36064409	88	10.5	88	87	1	1217	20	23	20	34	1.97
36063555--36064046	44	11.2	44	63	18	148	21	21	21	34	1.96
36076357--36076397	19	2.1	19	86	9	55	63	0	4	31	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36081851--36082323	236	2.0	236	100	0	946	35	17	17	28	1.93
36085559--36086331	45	17.6	44	65	10	224	28	24	18	28	1.98
36085644--36086240	45	13.5	45	66	13	265	28	25	17	29	1.97
36085607--36086384	132	5.9	132	92	0	1209	28	24	17	28	1.98
36090877--36091261	198	1.9	198	96	0	716	35	13	17	33	1.89
36138335--36138653	40	8.5	39	69	20	173	30	20	21	27	1.98
36138339--36138678	35	9.1	35	70	18	206	30	20	21	27	1.98
36138298--36138767	75	6.3	75	88	1	564	30	21	22	25	1.99
36141804--36141853	25	2.0	25	100	0	100	44	0	24	32	1.54
36145830--36145881	6	8.7	6	85	8	61	9	17	38	34	1.82
36145827--36145881	18	3.1	18	84	10	76	10	16	38	34	1.84
36157684--36157731	19	2.6	19	83	3	62	33	2	16	47	1.58
36157745--36157837	43	2.2	43	90	3	143	26	6	15	51	1.67
36181463--36181629	68	2.4	69	82	4	178	29	14	23	32	1.94
36181639--36181925	76	3.9	72	88	4	405	27	16	22	33	1.95
36181653--36181925	149	1.8	147	90	3	440	28	16	23	31	1.96
36182028--36182194	68	2.4	68	84	3	201	29	14	22	33	1.94
36181800--36182245	229	2.0	226	90	4	700	28	14	22	34	1.94
36182090--36182676	122	4.6	123	76	14	601	26	14	22	35	1.93
36182348--36182596	73	3.5	71	84	5	277	28	15	23	32	1.95
36182441--36182793	122	2.9	124	75	14	361	26	14	22	35	1.93
36182687--36182956	72	3.6	72	81	12	290	31	15	20	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36182028--36182950	396	2.3	391	84	7	1156	28	14	21	34	1.93
36182890--36183054	89	1.8	90	93	1	287	31	13	18	35	1.90
36182983--36183160	73	2.5	70	88	3	241	28	15	23	33	1.95
36182811--36183112	162	1.8	162	85	7	419	30	15	20	33	1.94
36182983--36183511	199	2.7	193	84	5	661	26	15	23	34	1.94
36183385--36183526	72	2.0	73	90	1	223	22	15	23	38	1.92
36183522--36183746	73	3.1	72	81	4	254	30	15	21	32	1.95
36183518--36183717	73	2.8	71	84	2	256	31	14	21	33	1.93
36183737--36183771	14	2.5	14	95	0	61	17	14	8	60	1.58
36183590--36183989	162	2.4	161	87	2	557	26	17	22	34	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235